data_4UPU # _model_server_result.job_id pl2xFmZzOEOMsw96NhWKcg _model_server_result.datetime_utc '2024-11-16 18:30:32' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 4upu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1154}' # _entry.id 4UPU # _exptl.entry_id 4UPU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 4UPU _cell.length_a 159.48 _cell.length_b 159.48 _cell.length_c 159.48 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4UPU _symmetry.cell_setting ? _symmetry.Int_Tables_number 211 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 4 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 48-meric _pdbx_struct_assembly.oligomeric_count 48 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 18_564 -x,z+1,y-1 -1 0 0 0 0 1 0 1 0 0 159.48 -159.48 3 'crystal symmetry operation' 7_564 -z,-x+1,y-1 0 0 -1 -1 0 0 0 1 0 0 159.48 -159.48 4 'crystal symmetry operation' 20_564 x,-z+1,y-1 1 0 0 0 0 -1 0 1 0 0 159.48 -159.48 5 'crystal symmetry operation' 8_566 -z,x+1,-y+1 0 0 -1 1 0 0 0 -1 0 0 159.48 159.48 6 'crystal symmetry operation' 12_665 -y+1,-z+1,x 0 -1 0 0 0 -1 1 0 0 159.48 159.48 0 7 'crystal symmetry operation' 17_566 x,z+1,-y+1 1 0 0 0 0 1 0 -1 0 0 159.48 159.48 8 'crystal symmetry operation' 22_575 z,-y+2,x 0 0 1 0 -1 0 1 0 0 0 318.96 0 9 'crystal symmetry operation' 19_566 -x,-z+1,-y+1 -1 0 0 0 0 -1 0 -1 0 0 159.48 159.48 10 'crystal symmetry operation' 10_665 -y+1,z+1,-x 0 -1 0 0 0 1 -1 0 0 159.48 159.48 0 11 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 12 'crystal symmetry operation' 13_465 y-1,x+1,-z 0 1 0 1 0 0 0 0 -1 -159.48 159.48 0 13 'crystal symmetry operation' 23_555 -z,y,x 0 0 -1 0 1 0 1 0 0 0 0 0 14 'crystal symmetry operation' 15_465 y-1,-x+1,z 0 1 0 -1 0 0 0 0 1 -159.48 159.48 0 15 'crystal symmetry operation' 2_575 -x,-y+2,z -1 0 0 0 -1 0 0 0 1 0 318.96 0 16 'crystal symmetry operation' 5_564 z,x+1,y-1 0 0 1 1 0 0 0 1 0 0 159.48 -159.48 17 'crystal symmetry operation' 21_555 z,y,-x 0 0 1 0 1 0 -1 0 0 0 0 0 18 'crystal symmetry operation' 6_566 z,-x+1,-y+1 0 0 1 -1 0 0 0 -1 0 0 159.48 159.48 19 'crystal symmetry operation' 4_575 x,-y+2,-z 1 0 0 0 -1 0 0 0 -1 0 318.96 0 20 'crystal symmetry operation' 9_465 y-1,z+1,x 0 1 0 0 0 1 1 0 0 -159.48 159.48 0 21 'crystal symmetry operation' 11_465 y-1,-z+1,-x 0 1 0 0 0 -1 -1 0 0 -159.48 159.48 0 22 'crystal symmetry operation' 24_575 -z,-y+2,-x 0 0 -1 0 -1 0 -1 0 0 0 318.96 0 23 'crystal symmetry operation' 14_665 -y+1,-x+1,-z 0 -1 0 -1 0 0 0 0 -1 159.48 159.48 0 24 'crystal symmetry operation' 16_665 -y+1,x+1,z 0 -1 0 1 0 0 0 0 1 159.48 159.48 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OD1 ASP 20 A ASP 21 1_555 C CA CA . A CA 1149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc2 A OD1 ASP 22 A ASP 23 1_555 C CA CA . A CA 1149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc3 A OD1 ASP 24 A ASP 25 1_555 C CA CA . A CA 1149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc4 A O THR 26 A THR 27 1_555 C CA CA . A CA 1149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc5 A OE1 GLU 31 A GLU 32 1_555 C CA CA . A CA 1149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc6 A OE2 GLU 31 A GLU 32 1_555 C CA CA . A CA 1149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc7 A OD1 ASP 56 A ASP 57 1_555 D CA CA . A CA 1150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc8 A OD1 ASP 58 A ASP 59 1_555 D CA CA . A CA 1150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? metalc ? metalc9 A OD1 ASN 60 A ASN 61 1_555 D CA CA . A CA 1150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc10 A O THR 62 A THR 63 1_555 D CA CA . A CA 1150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc11 A OE1 GLU 67 A GLU 68 1_555 D CA CA . A CA 1150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.551 ? metalc ? metalc12 A OE2 GLU 67 A GLU 68 1_555 D CA CA . A CA 1150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc13 A OD1 ASP 93 A ASP 94 1_555 E CA CA . A CA 1151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? metalc ? metalc14 A OD1 ASP 95 A ASP 96 1_555 E CA CA . A CA 1151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.505 ? metalc ? metalc15 A OD1 ASN 97 A ASN 98 1_555 E CA CA . A CA 1151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc16 A O TYR 99 A TYR 100 1_555 E CA CA . A CA 1151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? metalc ? metalc17 A OE1 GLU 104 A GLU 105 1_555 E CA CA . A CA 1151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc18 A OE2 GLU 104 A GLU 105 1_555 E CA CA . A CA 1151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc19 A OD2 ASP 118 A ASP 119 6_566 G CA CA . A CA 1153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.036 ? metalc ? metalc20 A OD2 ASP 118 A ASP 119 12_665 G CA CA . A CA 1153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.093 ? metalc ? metalc21 A OD2 ASP 118 A ASP 119 1_555 G CA CA . A CA 1153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.898 ? metalc ? metalc22 A OD1 ASP 129 A ASP 130 1_555 F CA CA . A CA 1152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc23 A OD1 ASP 131 A ASP 132 1_555 F CA CA . A CA 1152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc24 A OD1 ASP 133 A ASP 134 1_555 F CA CA . A CA 1152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc25 A O GLN 135 A GLN 136 1_555 F CA CA . A CA 1152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc26 A OE1 GLU 140 A GLU 141 1_555 F CA CA . A CA 1152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc27 A OE2 GLU 140 A GLU 141 1_555 F CA CA . A CA 1152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.492 ? metalc ? metalc28 C CA CA . A CA 1149 1_555 I O HOH . A HOH 2011 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc29 D CA CA . A CA 1150 1_555 I O HOH . A HOH 2030 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc30 D CA CA . A CA 1150 1_555 I O HOH . A HOH 2031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc31 E CA CA . A CA 1151 1_555 I O HOH . A HOH 2049 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc32 F CA CA . A CA 1152 1_555 I O HOH . A HOH 2071 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc33 G CA CA . A CA 1153 1_555 I O HOH . A HOH 2060 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc34 G CA CA . A CA 1153 1_555 I O HOH . A HOH 2060 6_566 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc35 G CA CA . A CA 1153 1_555 I O HOH . A HOH 2060 12_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 O1 GOL sing 116 n n C1 C2 GOL sing 117 n n C1 H11 GOL sing 118 n n C1 H12 GOL sing 119 n n O1 HO1 GOL sing 120 n n C2 O2 GOL sing 121 n n C2 C3 GOL sing 122 n n C2 H2 GOL sing 123 n n O2 HO2 GOL sing 124 n n C3 O3 GOL sing 125 n n C3 H31 GOL sing 126 n n C3 H32 GOL sing 127 n n O3 HO3 GOL sing 128 n n # _atom_sites.entry_id 4UPU _atom_sites.fract_transf_matrix[1][1] 0.00627 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00627 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.00627 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 CA A 1 1149 1149 CA CA . D 3 CA A 1 1150 1150 CA CA . E 3 CA A 1 1151 1151 CA CA . F 3 CA A 1 1152 1152 CA CA . G 3 CA A 1 1153 1153 CA CA . H 4 GOL A 1 1154 1154 GOL GOL . I 5 HOH A 1 2001 2001 HOH HOH . I 5 HOH A 2 2002 2002 HOH HOH . I 5 HOH A 3 2003 2003 HOH HOH . I 5 HOH A 4 2004 2004 HOH HOH . I 5 HOH A 5 2005 2005 HOH HOH . I 5 HOH A 6 2006 2006 HOH HOH . I 5 HOH A 7 2007 2007 HOH HOH . I 5 HOH A 8 2008 2008 HOH HOH . I 5 HOH A 9 2009 2009 HOH HOH . I 5 HOH A 10 2010 2010 HOH HOH . I 5 HOH A 11 2011 2011 HOH HOH . I 5 HOH A 12 2012 2012 HOH HOH . I 5 HOH A 13 2013 2013 HOH HOH . I 5 HOH A 14 2014 2014 HOH HOH . I 5 HOH A 15 2015 2015 HOH HOH . I 5 HOH A 16 2016 2016 HOH HOH . I 5 HOH A 17 2017 2017 HOH HOH . I 5 HOH A 18 2018 2018 HOH HOH . I 5 HOH A 19 2019 2019 HOH HOH . I 5 HOH A 20 2020 2020 HOH HOH . I 5 HOH A 21 2021 2021 HOH HOH . I 5 HOH A 22 2022 2022 HOH HOH . I 5 HOH A 23 2023 2023 HOH HOH . I 5 HOH A 24 2024 2024 HOH HOH . I 5 HOH A 25 2025 2025 HOH HOH . I 5 HOH A 26 2026 2026 HOH HOH . I 5 HOH A 27 2027 2027 HOH HOH . I 5 HOH A 28 2028 2028 HOH HOH . I 5 HOH A 29 2029 2029 HOH HOH . I 5 HOH A 30 2030 2030 HOH HOH . I 5 HOH A 31 2031 2031 HOH HOH . I 5 HOH A 32 2032 2032 HOH HOH . I 5 HOH A 33 2033 2033 HOH HOH . I 5 HOH A 34 2034 2034 HOH HOH . I 5 HOH A 35 2035 2035 HOH HOH . I 5 HOH A 36 2036 2036 HOH HOH . I 5 HOH A 37 2037 2037 HOH HOH . I 5 HOH A 38 2038 2038 HOH HOH . I 5 HOH A 39 2039 2039 HOH HOH . I 5 HOH A 40 2040 2040 HOH HOH . I 5 HOH A 41 2041 2041 HOH HOH . I 5 HOH A 42 2042 2042 HOH HOH . I 5 HOH A 43 2043 2043 HOH HOH . I 5 HOH A 44 2044 2044 HOH HOH . I 5 HOH A 45 2045 2045 HOH HOH . I 5 HOH A 46 2046 2046 HOH HOH . I 5 HOH A 47 2047 2047 HOH HOH . I 5 HOH A 48 2048 2048 HOH HOH . I 5 HOH A 49 2049 2049 HOH HOH . I 5 HOH A 50 2050 2050 HOH HOH . I 5 HOH A 51 2051 2051 HOH HOH . I 5 HOH A 52 2052 2052 HOH HOH . I 5 HOH A 53 2053 2053 HOH HOH . I 5 HOH A 54 2054 2054 HOH HOH . I 5 HOH A 55 2055 2055 HOH HOH . I 5 HOH A 56 2056 2056 HOH HOH . I 5 HOH A 57 2057 2057 HOH HOH . I 5 HOH A 58 2058 2058 HOH HOH . I 5 HOH A 59 2059 2059 HOH HOH . I 5 HOH A 60 2060 2060 HOH HOH . I 5 HOH A 61 2061 2061 HOH HOH . I 5 HOH A 62 2062 2062 HOH HOH . I 5 HOH A 63 2063 2063 HOH HOH . I 5 HOH A 64 2064 2064 HOH HOH . I 5 HOH A 65 2065 2065 HOH HOH . I 5 HOH A 66 2066 2066 HOH HOH . I 5 HOH A 67 2067 2067 HOH HOH . I 5 HOH A 68 2068 2068 HOH HOH . I 5 HOH A 69 2069 2069 HOH HOH . I 5 HOH A 70 2070 2070 HOH HOH . I 5 HOH A 71 2071 2071 HOH HOH . I 5 HOH A 72 2072 2072 HOH HOH . I 5 HOH A 73 2073 2073 HOH HOH . I 5 HOH A 74 2074 2074 HOH HOH . J 5 HOH B 1 2001 2001 HOH HOH . J 5 HOH B 2 2002 2002 HOH HOH . J 5 HOH B 3 2003 2003 HOH HOH . J 5 HOH B 4 2004 2004 HOH HOH . J 5 HOH B 5 2005 2005 HOH HOH . J 5 HOH B 6 2006 2006 HOH HOH . J 5 HOH B 7 2007 2007 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 GOL . . . H 4 29.191 123.29 33.268 1 27.84 ? C1 GOL 1154 A 1 HETATM 2 O O1 GOL . . . H 4 29.843 123.759 32.1 1 26.45 ? O1 GOL 1154 A 1 HETATM 3 C C2 GOL . . . H 4 27.882 123.202 32.58 1 28.12 ? C2 GOL 1154 A 1 HETATM 4 O O2 GOL . . . H 4 28.402 122.654 31.389 1 27.36 ? O2 GOL 1154 A 1 HETATM 5 C C3 GOL . . . H 4 27.414 124.606 32.413 1 27.84 ? C3 GOL 1154 A 1 HETATM 6 O O3 GOL . . . H 4 26.177 124.761 31.691 1 30.77 ? O3 GOL 1154 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #